BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0359.0005.p
         (154 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3KJ68.1 B3KJ68_9BACI PAS sensor protein                              190   3e-47
Q5WK44.1 Q5WK44_BACSK Nitrate/nitrite transporter                     186   7e-46
Q1LBF7.1 Q1LBF7_RALME Diguanylate cyclase/phosphodiesterase with...   141   2e-32
C0ZKM3.1 C0ZKM3_BREBN Probable nitrite extrusion protein              140   3e-32
C3F5K2.1 C3F5K2_BACTU PAS sensor protein                              139   6e-32

>B3KJ68.1 B3KJ68_9BACI PAS sensor protein
          Length = 506

 Score =  190 bits (483), Expect = 3e-47,   Method: Composition-based stats.
 Identities = 87/118 (73%), Positives = 101/118 (85%)

Query: 19  YHDRLALTSEVFNSTAQGILVTDAAGVIKSVNPAFTRLTGFTEAEVLGKQPNVLKSGRQS 78
           Y D+LA+ SEVFNST QGILVTD +G I +VNPAFT+LTG++E EVLGK P+VLKSGRQS
Sbjct: 379 YQDKLAVQSEVFNSTGQGILVTDPSGRISAVNPAFTKLTGYSEEEVLGKNPSVLKSGRQS 438

Query: 79  QDFYRSMWSEIRAKGVWQGEIWNRRKNGEEYLQLLNISAVKDETGVDIRYVGTFSDIT 136
             FYR+MWSEI  +G WQGEIWNRRKNGEEYL+LL I+AV+DE+G  I YVGTFSDIT
Sbjct: 439 PAFYRAMWSEIMERGSWQGEIWNRRKNGEEYLELLTINAVRDESGDIIHYVGTFSDIT 496


>Q5WK44.1 Q5WK44_BACSK Nitrate/nitrite transporter
          Length = 502

 Score =  186 bits (471), Expect = 7e-46,   Method: Composition-based stats.
 Identities = 85/118 (72%), Positives = 97/118 (82%)

Query: 19  YHDRLALTSEVFNSTAQGILVTDAAGVIKSVNPAFTRLTGFTEAEVLGKQPNVLKSGRQS 78
           Y D+L + S+VFNST QGILVTDA   I +VNPAFTRLTG+ E EVLG+ PN+LKSGRQS
Sbjct: 377 YQDKLTVASQVFNSTGQGILVTDAKKRIHAVNPAFTRLTGYEEEEVLGRNPNLLKSGRQS 436

Query: 79  QDFYRSMWSEIRAKGVWQGEIWNRRKNGEEYLQLLNISAVKDETGVDIRYVGTFSDIT 136
             FY+ MW+EI  KG WQGEIWNRRKNGEEYL+LL I+AVKDETG  + YVGTFSDIT
Sbjct: 437 SAFYQIMWTEIMEKGSWQGEIWNRRKNGEEYLELLTINAVKDETGDIVHYVGTFSDIT 494


>Q1LBF7.1 Q1LBF7_RALME Diguanylate cyclase/phosphodiesterase with PAS/PAC
           sensor(S)
          Length = 839

 Score =  141 bits (355), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 65/118 (55%), Positives = 85/118 (72%), Gaps = 2/118 (1%)

Query: 19  YHDRLALTSEVFNSTAQGILVTDAAGVIKSVNPAFTRLTGFTEAEVLGKQPNVLKSGRQS 78
           YH RLA    VF ST  G++VTD  GVI+ VNPAFT+LTG+T  E +G+ P +L SGRQ 
Sbjct: 278 YHLRLA--DRVFESTLDGVMVTDLNGVIEQVNPAFTQLTGYTLDEAIGRTPRMLSSGRQG 335

Query: 79  QDFYRSMWSEIRAKGVWQGEIWNRRKNGEEYLQLLNISAVKDETGVDIRYVGTFSDIT 136
             FY+ MWS++RA+G W+GEIWNRRKNGE YL+ L++S++ ++ G    Y   FSDIT
Sbjct: 336 PSFYQEMWSQLRAQGHWKGEIWNRRKNGELYLEHLSVSSICNQAGECTHYAAIFSDIT 393


>C0ZKM3.1 C0ZKM3_BREBN Probable nitrite extrusion protein
          Length = 499

 Score =  140 bits (354), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 63/119 (52%), Positives = 83/119 (69%)

Query: 19  YHDRLALTSEVFNSTAQGILVTDAAGVIKSVNPAFTRLTGFTEAEVLGKQPNVLKSGRQS 78
           Y ++L L + +   T + IL+TD  GVIKS N AFT++TG+   EV+GK PN+LKSGRQ+
Sbjct: 377 YQEKLQLAATIMEKTGEAILITDTRGVIKSANHAFTKVTGYEMNEVIGKSPNILKSGRQN 436

Query: 79  QDFYRSMWSEIRAKGVWQGEIWNRRKNGEEYLQLLNISAVKDETGVDIRYVGTFSDITR 137
            DFY+ MW  I+  G WQGEIWNRRKNG++YLQ L ISA+ D+ G    Y G FS++  
Sbjct: 437 ADFYQKMWDSIKKNGYWQGEIWNRRKNGDQYLQWLTISAILDDAGEVEYYAGMFSELVE 495


>C3F5K2.1 C3F5K2_BACTU PAS sensor protein
          Length = 484

 Score =  139 bits (351), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 62/118 (52%), Positives = 83/118 (70%)

Query: 19  YHDRLALTSEVFNSTAQGILVTDAAGVIKSVNPAFTRLTGFTEAEVLGKQPNVLKSGRQS 78
           Y ++L+L +++  S AQG++VTD  G+IK +NPAFTR+TG+   EV+GK PN+L+SG  +
Sbjct: 363 YLEKLSLETKIIESVAQGMMVTDTKGIIKKINPAFTRVTGYQSKEVIGKTPNILRSGLHN 422

Query: 79  QDFYRSMWSEIRAKGVWQGEIWNRRKNGEEYLQLLNISAVKDETGVDIRYVGTFSDIT 136
            +FY  MW  IR  G WQGEI N+RKN E Y + L ISAVK+E      YVG FSD+T
Sbjct: 423 ANFYHKMWESIRVNGYWQGEIMNKRKNNEIYSEWLTISAVKNEVQEVKYYVGLFSDLT 480


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.318    0.133    0.394 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 753,068,920
Number of extensions: 28559500
Number of successful extensions: 69849
Number of sequences better than 1.0e-05: 1461
Number of HSP's gapped: 70302
Number of HSP's successfully gapped: 1495
Length of query: 154
Length of database: 3,060,696,203
Length adjustment: 116
Effective length of query: 38
Effective length of database: 1,967,858,463
Effective search space: 74778621594
Effective search space used: 74778621594
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 125 (52.8 bits)